..From the model, we have identified two putative immunogenic regions, one of which is unique to EV71. The hydrophobic pocket within VP1, found in bovine enterovirus, poliovirus and rhinovirus, is also conserved in EV71...

..We describe the diverse datasets created/collected by various groups and their key findings inferring distinguishing features. The currently available interface databases and prediction servers have also been compiled. ..

InCoB2012 Conference: from biological data to knowledge to technological breakthroughs

..Other highlights included sessions organized by the Pan-Asian Pacific Genome Initiative and a Machine Learning in Immunology competition. InCoB2013 is scheduled for September 18-21, 2013 at Suzhou, China...

..Proteotypic peptides have been computationally generated to facilitate rapid identification of these proteins. Four of the "missing" chromosome 7 proteins have been substantiated by the ENCODE proteogenomic peptide data...

InCoB celebrates its tenth anniversary as first joint conference with ISCB-Asia

..1%) were accepted. The strong showing of Asia among submissions (82.7%) and acceptances (81.6%) signals the success of this tenth InCoB anniversary meeting, and bodes well for the future of ISCB-Asia...

Towards big data science in the decade ahead from ten years of InCoB and the 1st ISCB-Asia Joint Conference

Tin Wee TanDepartment of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore, SingaporeBMC Genomics 11:S27. 2010

..This testbed represents another step in advancing standards-based processes in the bioinformatics community which is essential to the growing interoperability of biological data, information, knowledge and computational resources...

A multi-factor model for caspase degradome prediction

Lawrence J K WeeDepartment of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore, SingaporeBMC Genomics 10:S6. 2009

..Of the myriad software prediction tools developed to automate the task of assigning the SP cleavage site of these new sequences, we review here, the performance and reliability of commonly used SP prediction tools...

A transcriptomic analysis of the adult stage of the bovine lungworm, Dictyocaulus viviparus

Shoba RanganathanDepartment of Chemistry and Biomolecular Sciences and Australian Research Council ARC Centre of Excellence in Bioinformatics, Macquarie University, Sydney, New South Wales 2109, AustraliaBiotechnol Adv 27:439-48. 2009

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Challenges of the next decade for the Asia Pacific region: 2010 International Conference in Bioinformatics (InCoB 2010)

..circumcincta, there is some potential for the development of a vaccine against this parasite. Hence, we infer excretory/secretory molecules for T. circumcincta as possible immunogens and vaccine candidates...

..This collaboration between the Yaegl Aboriginal community in northern New South Wales (NSW), Australia and an academic institution, demonstrates an effective means of preserving and adding value to this information...

Genome-wide analysis of alternative splicing in cow: implications in bovine as a model for human diseases

..hepatica are secreted into the parasite gut via a classical endoplasmic reticulum/Golgi pathway, we speculate that the antioxidants, which all lack a signal sequence, are released via a non-classical trans-tegumental pathway...

A site for direct integrin αvβ6·uPAR interaction from structural modelling and docking

..This study has resulted in the functional characterization of novel proteins to increase our biological understanding of this organism and to uncover potential biomarkers of authenticity, freshness, and perfume maturation...

Understanding TR binding to pMHC complexes: how does a TR scan many pMHC complexes yet preferentially bind to one

..This combined approach provides a set of sensitive and specific computational tools to facilitate high-throughput screening of peptides for immunotherapeutic applications such as controlling allergic and autoimmune responses...

..We report here a structure-based model for the prediction of peptide binding to DRB1*0402 and DQB1*0503. The scoring functions were rigorously trained, tested and validated using experimentally verified peptide sequences...

SCORPION2: a database for structure-function analysis of scorpion toxins

..elegans using the parasite homologue/orthologue Tv-ant-1. This first insight into an ANT of T. vitrinus provides a foundation for exploring its role in developmental and/or survival processes of trichostrongylid nematodes...

SVM-based prediction of caspase substrate cleavage sites

Lawrence J K WeeDepartment of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore, SingaporeBMC Bioinformatics 7:S14. 2006

..As the support vector machines (SVM) algorithm has been shown to be useful in several biological classification problems, we have implemented an SVM-based method to investigate its applicability to this domain...

SDPMOD: an automated comparative modeling server for small disulfide-bonded proteins